MolNFT v1 · #135620 · protein
Wild-type transthyretin in complex with 1,1'-(1E)-(1,2-ethenediyl) BIS[2-chloro-4-boronic ACID]BENZENE
5U4F: “Wild-type transthyretin in complex with 1,1'-(1E)-(1,2-ethenediyl) BIS[2-chloro-4-boronic ACID]BENZENE”. X-ray diffraction, 1 ligand (IWW), 2 pockets (best druggability 0.31). MolNFT v1 #135620 on GenesisL1: 3D structure, binding…
- PDB
- 5U4F
- Type
- protein
- Length
- 231 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transthyretin
- UniProt
- P02766
- Ligands
- IWW
- Pockets
- 2 · best druggability 0.31
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transthyretin | protein | 116 | 5% helix, 53% strand | P02766 |
| B | Transthyretin | protein | 115 | 6% helix, 53% strand | P02766 |
Ligands and binding sites
- IWW · [(E)-ethene-1,2-diylbis(3-chloro-4,1-phenylene) ]diboronic acid · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 68 | 0.31 | 0.75 | 15 | empty |
| 2 | 60 | 0.27 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 929 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 covalent (covalent ligand).
Compared structures
- 5U4F · Wild-type Transthyretin in complex with 1,1'-(1E)-(1,2-Ethenediyl)bis[2-chloro-4-boronic… · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P02766
- Elsewhere: RCSB PDB 5U4F · PDBe 5U4F · UniProt P02766
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